Fact is that every kind of -ism or religion represent a danger to the humanity in some way or another when some followers turn to fanatic or fundamentalistic ideas.
I believe Mustafa Kemal (Atatürk) understood the connection, and that's why he made the old Ottoman empire into a modern secular state with a democratic foundation.
As for muslims, just like hindus, jews, catholics, protestants and any other religion or belief, you will find good people and bad people.
Just look at the "Troubles" in Northern Ireland, and how Mahatma Ghandi got assasinated, or the Middle East, or....the list goes on.
I avoided some Pakistani youths who was probably celebrating the 911 by turning into a small alley, there I meet an middle aged Pakistani who was busy stacking crates of fresh vegetables outside his little grocery shop at the corner.
He looked at me, and then looked out in the main street at the cheering youths, and just shook his head.
He prayed 5 times a day, went to the Mosque, and was probably a true believing muslim, but his main battle was focused upon making a living for himself and his family, and to provide for his children to get an education.
His war couldn't be won by bombs and terrorism, only by hard work, and thus he found no pleasure in knowing that thousands of people was killed.